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ONTOLOGY REPORT - ANNOTATIONS


Term:pigment biosynthetic process
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Accession:GO:0046148 term browser browse the term
Definition:The chemical reactions and pathways resulting in the formation of a pigment, any general or particular coloring matter in living organisms, e.g. melanin.
Synonyms:exact_synonym: pigment anabolism;   pigment biosynthesis;   pigment formation;   pigment synthesis


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pigment biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G SOX2 SRY-box transcription factor 2 acts_upstream_of_or_within ISO (MGI:2181477|PMID:12036291) MGI PMID:12036291 MGI:2181477 NCBI chr34:14,853,000...14,855,153 JBrowse link
adenine salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G APRT adenine phosphoribosyltransferase involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 5:64,563,154...64,565,537
Ensembl chr 5:64,563,192...64,565,445
JBrowse link
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr  X:105,115,732...105,153,702
Ensembl chr  X:105,115,732...105,153,702
JBrowse link
guanine salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in IBA
ISS
(PMID:21873635) GO_Central
UniProt
PMID:21873635 GO_REF:0000024 NCBI chr  X:105,115,732...105,153,702
Ensembl chr  X:105,115,732...105,153,702
JBrowse link
G PRTFDC1 phosphoribosyl transferase domain containing 1 NOT|involved_in ISO (PMID:21054786) UniProt PMID:21054786 NCBI chr 2:8,551,008...8,643,710
Ensembl chr 2:8,559,319...8,642,533
JBrowse link
heme A biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G COX10 cytochrome c oxidase assembly factor heme A:farnesyltransferase COX10 involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3604933|PMID:16103131)
(MGI:3640032|PMID:16782876)
Ensembl
MGI
PMID:16103131 PMID:16782876 GO_REF:0000107 MGI:3604933 MGI:3640032 NCBI chr 5:37,853,495...37,982,228
Ensembl chr 5:37,852,875...37,982,243
JBrowse link
G COX15 cytochrome c oxidase assembly homolog COX15 involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr28:12,609,690...12,625,467
Ensembl chr28:12,610,401...12,624,087
JBrowse link
heme B biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ABCB6 ATP binding cassette subfamily B member 6 NOT|involved_in ISO (PMID:22655043) UniProt PMID:22655043 NCBI chr37:25,760,478...25,767,753
Ensembl chr37:25,760,477...25,769,841
JBrowse link
heme biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ABCB10 ATP binding cassette subfamily B member 10 involved_in ISO (MGI:5648801|PMID:24421385) UniProt PMID:24421385 MGI:5648801 NCBI chr 4:9,711,509...9,746,785
Ensembl chr 4:9,711,100...9,745,106
JBrowse link
G ALAD aminolevulinate dehydratase involved_in
acts_upstream_of_or_within
ISO (PMID:11032836)
(MGI:53493|PMID:4959158), (MGI:53609|PMID:4981581), (MGI:63121|PMID:14050799)
RGD
UniProt
MGI
PMID:1764448 PMID:4959158 PMID:4981581 PMID:11032836 PMID:14050799 MGI:53493 MGI:53609 MGI:63121 RGD:1599020 NCBI chr11:67,736,643...67,752,399
Ensembl chr11:67,741,390...67,752,321
JBrowse link
G ALAS2 5'-aminolevulinate synthase 2 involved_in ISO (MGI:3694153|PMID:9446639) UniProt PMID:9446639 MGI:3694153 NCBI chr  X:46,703,477...46,731,767
Ensembl chr  X:46,703,477...46,723,529
JBrowse link
G ATP5IF1 ATP synthase inhibitory factor subunit 1 involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 2:72,188,562...72,191,344
Ensembl chr 2:72,188,266...72,191,326
JBrowse link
G COX10 cytochrome c oxidase assembly factor heme A:farnesyltransferase COX10 involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 5:37,853,495...37,982,228
Ensembl chr 5:37,852,875...37,982,243
JBrowse link
G CPOX coproporphyrinogen oxidase acts_upstream_of_or_within ISO (MGI:77569|PMID:8407975) RGD
MGI
PMID:3955059 PMID:8407975 MGI:77569 RGD:1600961 NCBI chr33:5,446,022...5,459,152
Ensembl chr33:5,447,414...5,459,461
JBrowse link
G FECH ferrochelatase involved_in
acts_upstream_of_or_within
ISO (PMID:27599036)
(MGI:3620268|PMID:16503645), (MGI:3696634|PMID:15496139)
(MGI:79136|PMID:8611576)
(MGI:3794459|PMID:16306232)
(MGI:1327758|PMID:9989256)
RGD
UniProt
MGI
PMID:3955059 PMID:8611576 PMID:9989256 PMID:15496139 PMID:16306232 More... MGI:1327758 MGI:3620268 MGI:3696634 MGI:3794459 MGI:79136 RGD:1600961 NCBI chr 1:18,352,184...18,384,251
Ensembl chr 1:18,345,811...18,383,092
JBrowse link
G FXN frataxin involved_in IEA UniProt GO_REF:0000043 NCBI chr 1:88,288,566...88,311,228
Ensembl chr 1:88,288,566...88,311,228
JBrowse link
G HMBS hydroxymethylbilane synthase involved_in ISO (PMID:18936296) UniProt PMID:18936296 NCBI chr 5:14,767,306...14,775,205
Ensembl chr 5:14,767,666...14,775,082
JBrowse link
G HNF1A HNF1 homeobox A involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:1352605|PMID:10617683) Ensembl
MGI
PMID:10617683 GO_REF:0000107 MGI:1352605 NCBI chr26:16,805,690...16,826,065
Ensembl chr26:16,805,690...16,824,790
JBrowse link
G PGRMC1 progesterone receptor membrane component 1 involved_in ISO (PMID:27599036) UniProt PMID:27599036 NCBI chr  X:91,329,243...91,337,951
Ensembl chr  X:91,329,243...91,337,951
JBrowse link
G PPOX protoporphyrinogen oxidase involved_in
acts_upstream_of_or_within
ISO (PMID:7713909)
(MGI:3687447|PMID:3346226)
RGD
UniProt
MGI
PMID:3346226 PMID:3955059 PMID:7713909 MGI:3687447 RGD:1600961 NCBI chr38:21,306,973...21,310,892
Ensembl chr38:21,306,974...21,311,012
JBrowse link
G SLC11A2 solute carrier family 11 member 2 involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3691553|PMID:11739192) Ensembl
MGI
PMID:11739192 GO_REF:0000107 MGI:3691553 NCBI chr27:3,788,785...3,823,852
Ensembl chr27:3,787,855...3,822,672
JBrowse link
G UROD uroporphyrinogen decarboxylase involved_in
acts_upstream_of_or_within
IBA
ISO
(PMID:21873635)
(MGI:3703836|PMID:17360334)
GO_Central
MGI
PMID:17360334 PMID:21873635 MGI:3703836 NCBI chr15:15,313,808...15,317,130
Ensembl chr15:15,312,674...15,320,010
JBrowse link
G UROS uroporphyrinogen III synthase involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr28:34,952,074...34,983,532
Ensembl chr28:34,948,003...34,983,532
JBrowse link
heme O biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G COX10 cytochrome c oxidase assembly factor heme A:farnesyltransferase COX10 involved_in IEA InterPro GO_REF:0000002 NCBI chr 5:37,853,495...37,982,228
Ensembl chr 5:37,852,875...37,982,243
JBrowse link
hypoxanthine biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ADA adenosine deaminase acts_upstream_of_or_within ISO (MGI:3640719|PMID:10720488) MGI PMID:10720488 MGI:3640719 NCBI chr24:32,083,786...32,119,810
Ensembl chr24:32,083,931...32,111,160
JBrowse link
G PRPS1 phosphoribosyl pyrophosphate synthetase 1 involved_in ISO (PMID:17701896) UniProt PMID:17701896 NCBI chr  X:81,150,537...81,171,521
Ensembl chr  X:81,150,536...81,212,689
JBrowse link
hypoxanthine salvage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G HPRT1 hypoxanthine phosphoribosyltransferase 1 involved_in ISS UniProt GO_REF:0000024 NCBI chr  X:105,115,732...105,153,702
Ensembl chr  X:105,115,732...105,153,702
JBrowse link
melanin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ASIP agouti signaling protein acts_upstream_of_or_within ISO (MGI:76308|PMID:7665913) MGI PMID:7665913 MGI:76308 NCBI chr24:23,338,757...23,393,913
Ensembl chr24:23,354,888...23,393,896
JBrowse link
G CITED1 Cbp/p300 interacting transactivator with Glu/Asp rich carboxy-terminal domain 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:56,327,104...56,332,608
Ensembl chr  X:56,327,182...56,332,047
JBrowse link
G DCT dopachrome tautomerase acts_upstream_of_or_within ISO (MGI:76308|PMID:7665913) MGI PMID:7665913 MGI:76308 NCBI chr22:45,271,709...45,305,272
Ensembl chr22:45,271,709...45,305,346
JBrowse link
G MC1R melanocortin 1 receptor acts_upstream_of_or_within ISO (MGI:76308|PMID:7665913) MGI PMID:7665913 MGI:76308 NCBI chr 5:63,694,296...63,695,249 JBrowse link
G MFSD12 major facilitator superfamily domain containing 12 involved_in IEA UniProt GO_REF:0000043 NCBI chr20:55,855,102...55,863,606
Ensembl chr20:55,858,687...55,862,181
JBrowse link
G MYO5A myosin VA acts_upstream_of_or_within ISO (MGI:76308|PMID:7665913) MGI PMID:7665913 MGI:76308 NCBI chr30:17,990,521...18,122,160
Ensembl chr30:17,888,419...18,213,061
JBrowse link
G OCA2 OCA2 melanosomal transmembrane protein acts_upstream_of_or_within ISO (MGI:1202196|PMID:9548375), (MGI:76308|PMID:7665913) MGI PMID:7665913 PMID:9548375 MGI:1202196 MGI:76308 NCBI chr 3:32,361,825...32,713,631
Ensembl chr 3:32,361,517...32,713,572
JBrowse link
G PMEL premelanosome protein acts_upstream_of_or_within ISO (MGI:76308|PMID:7665913) MGI PMID:7665913 MGI:76308 NCBI chr10:292,595...327,618
Ensembl chr10:292,597...300,098
JBrowse link
G TRPC1 transient receptor potential cation channel subfamily C member 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr23:38,350,066...38,416,086
Ensembl chr23:38,350,278...38,414,464
JBrowse link
G TYR tyrosinase involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:1202196|PMID:9548375)
(MGI:76308|PMID:7665913)
UniProt
MGI
PMID:7665913 PMID:9548375 GO_REF:0000043 MGI:1202196 MGI:76308 NCBI chr21:10,799,940...10,894,187
Ensembl chr21:10,799,940...10,894,191
JBrowse link
melanin biosynthetic process from tyrosine term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DCT dopachrome tautomerase involved_in ISO (MGI:3690794|PMID:2169885) UniProt PMID:2169885 MGI:3690794 NCBI chr22:45,271,709...45,305,272
Ensembl chr22:45,271,709...45,305,346
JBrowse link
negative regulation of melanin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G MFSD12 major facilitator superfamily domain containing 12 involved_in IEA Ensembl GO_REF:0000107 NCBI chr20:55,855,102...55,863,606
Ensembl chr20:55,858,687...55,862,181
JBrowse link
G OPN3 opsin 3 involved_in ISO (PMID:31097585) UniProt PMID:31097585 NCBI chr 7:32,995,047...33,040,873
Ensembl chr 7:32,996,938...33,040,876
JBrowse link
G RAPGEF2 Rap guanine nucleotide exchange factor 2 involved_in ISS UniProt GO_REF:0000024 NCBI chr15:56,133,094...56,353,609
Ensembl chr15:56,174,578...56,352,569
JBrowse link
G SLC24A5 solute carrier family 24 member 5 acts_upstream_of_or_within ISO (MGI:3775882|PMID:18166528) MGI PMID:18166528 MGI:3775882 NCBI chr30:14,372,019...14,400,262
Ensembl chr30:14,371,778...14,400,152
JBrowse link
G WNT5A Wnt family member 5A involved_in ISO (MGI:5619434|PMID:23569434) CACAO PMID:23569434 MGI:5619434 NCBI chr20:34,756,430...34,790,937
Ensembl chr20:34,769,930...34,786,673
JBrowse link
positive regulation of heme biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ABCB7 ATP binding cassette subfamily B member 7 involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:58,305,804...58,470,827
Ensembl chr  X:58,306,776...58,471,417
JBrowse link
G SLC6A9 solute carrier family 6 member 9 involved_in ISO (MGI:6450351|PMID:28495915) ARUK-UCL PMID:28495915 MGI:6450351 NCBI chr15:16,235,342...16,267,161
Ensembl chr15:16,235,482...16,267,933
JBrowse link
positive regulation of melanin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G APPL1 adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chr20:33,123,577...33,166,831
Ensembl chr20:33,130,723...33,166,792
JBrowse link
G ASIP agouti signaling protein involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr24:23,338,757...23,393,913
Ensembl chr24:23,354,888...23,393,896
JBrowse link
G ATP7A ATPase copper transporting alpha involved_in IEA Ensembl GO_REF:0000107 NCBI chr  X:60,203,336...60,356,525
Ensembl chr  X:60,203,270...60,352,869
JBrowse link
G CDH3 cadherin 3 involved_in IEA Ensembl GO_REF:0000107 NCBI chr 5:80,864,859...80,912,136
Ensembl chr 5:80,863,661...80,913,019
JBrowse link
G GIPC1 GIPC PDZ domain containing family member 1 involved_in ISO (PMID:21291857) UniProt PMID:21291857 NCBI chr20:48,144,076...48,155,069
Ensembl chr20:48,150,498...48,157,191
JBrowse link
G OPN3 opsin 3 involved_in ISO (PMID:28842328) UniProt PMID:28842328 NCBI chr 7:32,995,047...33,040,873
Ensembl chr 7:32,996,938...33,040,876
JBrowse link
G PMEL premelanosome protein involved_in ISO (MGI:5294257|PMID:21949658) CACAO PMID:21949658 MGI:5294257 NCBI chr10:292,595...327,618
Ensembl chr10:292,597...300,098
JBrowse link
G TYRP1 tyrosinase related protein 1 involved_in ISO (PMID:21996312)
(MGI:5294257|PMID:21949658)
CACAO PMID:21949658 PMID:21996312 MGI:5294257 NCBI chr11:33,317,084...33,336,029
Ensembl chr11:33,317,121...33,335,498
JBrowse link
protoporphyrinogen IX biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CPOX coproporphyrinogen oxidase ISO RGD PMID:3814086 RGD:4145128 NCBI chr33:5,446,022...5,459,152
Ensembl chr33:5,447,414...5,459,461
JBrowse link
G IREB2 iron responsive element binding protein 2 acts_upstream_of_or_within ISO (MGI:3695992|PMID:15831703) MGI PMID:15831703 MGI:3695992 NCBI chr13:38,398,445...38,441,128
Ensembl chr13:38,400,591...38,441,015
JBrowse link
G UROD uroporphyrinogen decarboxylase involved_in IEA UniProt GO_REF:0000041 NCBI chr15:15,313,808...15,317,130
Ensembl chr15:15,312,674...15,320,010
JBrowse link
G UROS uroporphyrinogen III synthase involved_in IEA UniProt GO_REF:0000041 NCBI chr28:34,952,074...34,983,532
Ensembl chr28:34,948,003...34,983,532
JBrowse link
purine nucleobase biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC100856570 phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase involved_in IEA UniProt GO_REF:0000104 NCBI chr31:28,133,546...28,165,595 JBrowse link
G PPAT phosphoribosyl pyrophosphate amidotransferase involved_in IEA InterPro GO_REF:0000002 NCBI chr13:48,618,460...48,656,164
Ensembl chr13:48,620,714...48,655,780
JBrowse link
G SHMT1 serine hydroxymethyltransferase 1 involved_in IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 5:41,221,531...41,248,653
Ensembl chr 5:41,221,562...41,253,166
JBrowse link
regulation of heme biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC478720 transmembrane protein 14C acts_upstream_of_or_within ISO (MGI:5581691|PMID:25157825) MGI PMID:25157825 MGI:5581691 NCBI chr35:10,454,501...10,462,296 JBrowse link
G SRRD SRR1 domain containing involved_in ISO (MGI:6282940|PMID:28802827) UniProt PMID:28802827 MGI:6282940 NCBI chr26:20,172,236...20,186,236 JBrowse link
regulation of melanin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CTNS cystinosin, lysosomal cystine transporter involved_in ISO (PMID:22649030) UniProt PMID:22649030 NCBI chr 9:47,474,488...47,490,951
Ensembl chr 9:47,473,901...47,490,252
JBrowse link
G MFSD12 major facilitator superfamily domain containing 12 involved_in IMP (PMID:31117290) UniProt PMID:31117290 NCBI chr20:55,855,102...55,863,606
Ensembl chr20:55,858,687...55,862,181
JBrowse link
G SLC7A11 solute carrier family 7 member 11 involved_in
acts_upstream_of_or_within
IEA
ISO
(MGI:3588610|PMID:16037214) Ensembl
MGI
PMID:16037214 GO_REF:0000107 MGI:3588610 NCBI chr19:4,289,792...4,379,060
Ensembl chr19:4,289,850...4,389,048
JBrowse link
xanthine biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ADA adenosine deaminase acts_upstream_of_or_within ISO (MGI:3640719|PMID:10720488) MGI PMID:10720488 MGI:3640719 NCBI chr24:32,083,786...32,119,810
Ensembl chr24:32,083,931...32,111,160
JBrowse link
zeaxanthin biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G RPE65 retinoid isomerohydrolase RPE65 involved_in ISS UniProt GO_REF:0000024 NCBI chr 6:76,887,399...76,911,133
Ensembl chr 6:76,887,399...76,911,131
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 13863
    metabolic process 8968
      pigment metabolic process 63
        pigment biosynthetic process 53
          anthocyanin-containing compound biosynthetic process + 0
          aurone biosynthetic process 0
          carotenoid biosynthetic process + 1
          chlorophyll biosynthetic process + 0
          eye pigment biosynthetic process + 0
          flavone biosynthetic process + 0
          heme biosynthetic process + 22
          melanin biosynthetic process + 21
          ocellus pigment biosynthetic process + 0
          phlobaphene biosynthetic process 0
          phytochrome chromophore biosynthetic process 0
          pigment biosynthetic process involved in pigment accumulation + 0
          pteridine biosynthetic process 0
          purine nucleobase biosynthetic process + 8
paths to the root